{"database": "metadata", "table": "run_metadata", "rows": [[61688, "SRR13302966", "SRX9731824", "SRS7924603", "SRP290217", "PRJNA673345", "Zebrafish as an animal model for the antiviral RNA interference pathway", "GSE160475", "Transcriptome Analysis", "We have evaluated the possible use of zebrafish to study antiviral RNAi with sindbis virus SINV  vesicular stomatitis virus VSV  and nodamura virus NoV. We find that SINV and NoV viruses induce the production of virus derived small interfering RNAs vsiRNAs  the hallmark of antiviral RNAi  with a preference of 22 nucleotides in length post infection of larval zebrafish. Meanwhile  the suppressor of RNAi VSR protein  NoV B2  may affect the accumulation of the NoV virus in zebrafish. Overall design: 5 virus derived small RNA from zebrafish infected with different viruses was detected by small RNA seq.", null, null, null, "NoV\u25b3B2: Ago2 IP 3 dpi", "GSM4988099", null, "source name:zebrafish whole body|zebrafish background:AB|infection:NoV\u25b3B2|injection way:microinjection|tissue:zebrafish whole body", "NoV\u25b3B2: Ago2 IP 3 dpi", "Sequenced reads were trimmed for adaptor sequence  then mapped to virus genome using bowtie 1.1.2 with perfect match. Genome build: AF174533.1 AF174534.1;J02363.1;NC 001560.1 Supplementary files format and content: mapping results files generated by bowtie1.1.2", "zebrafish whole body", null, "Total RNA was extracted from zebrafish using TRIzol reagent. Small RNA libraries were constructed by  the TruSeq Small RNA Sample Preparation Kit of Illumina from total RNA.", null, "zebrafish background:AB|infection:NoV\u25b3B2|injection way:microinjection|tissue:zebrafish whole body", "GSM4988099", "GSM4988099: NoV\u25b3B2: Ago2 IP 3 dpi; Danio rerio; ncRNA Seq", "GSM4988099", null, "1", "Total RNA was extracted from zebrafish using TRIzol reagent. Small RNA libraries were constructed by  the TruSeq Small RNA Sample Preparation Kit of Illumina from total RNA.", "GEO Accession:GSM4988099", "ncRNA-Seq", "TRANSCRIPTOMIC", "size fractionation", "SINGLE", "ILLUMINA", "Illumina HiSeq 2500", null, "SRP290217", null, null, "LY272.fq.gz", "fastq", 2608504950.0, 17390033.0, "GSM4988099 r1", "0:150 1:0", "A:741941121;C:669191911;G:747181676;T:450096994;N:93248", 150, 0, null, null, 741941121, 669191911, 747181676, 450096994, 93248, "SRX9731824", "SRS7924603", "SRA1151114", "GEO", "Fudan University", 1, 0.13133, null, 0.03425, null, 0.96802, null, 0.60095, null, 150, null, "B", null, "usable mapping rate", "illumina", "hiseq_era", "unknown", "size_fractionation", "trueseq", "bulk", "unknown", "unknown", null, "China", "2020-12-24", "Undetermined", "Larval", "Trunk", "Surface Structure"]], "columns": ["rowid", "run.accession", "experiment.accession", "sample.accession", "study.accession", "bioproject", "study.title", "study.alias", "study.type", "study.abstract", "study.attributes", "study.PMIDs", "sample.description", "sample.title", "sample.alias", "sample.centername", "sample.attributes", "GEOsample.title", "GEOsample.dataprocessing", "GEOsample.source", "GEOsample.treatmentprotocol", "GEOsample.extractprotocol", "GEOsample.growthprotocol", "GEOsample.characteristics", "GEOsample.accession", "experiment.title", "experiment.alias", "experiment.library_name", "experiment.design_description", "experiment.library_construction_protocol", "experiment.attributes", "experiment.library_strategy", "experiment.library_source", "experiment.library_selection", "experiment.library_layout", "experiment.platform", "experiment.instrument_model", "experiment.spot_descriptor", "experiment.study_ref", "run.title", "run.attributes", "run.filename", "run.semantic_name", "run.total_bases", "run.total_spots", "run.alias", "run.read_lengths", "run.base_counts", "run.r1_length", "run.r2_length", "run.r3_length", "run.r4_length", "run.Acount", "run.Ccount", "run.Gcount", "run.Tcount", "run.Ncount", "run.experiment", "run.pool_member", "submission.accession", "submission.srasource", "submission.bioprojectsource", "seqdetective.n_mates", "seqdetective.mapping_rate.mate1", "seqdetective.mapping_rate.mate2", "seqdetective.nofeature_rate.mate1", "seqdetective.nofeature_rate.mate2", "seqdetective.sparsity.mate1", "seqdetective.sparsity.mate2", "seqdetective.pos_strand_rate.mate1", "seqdetective.pos_strand_rate.mate2", "seqdetective.readlen.mate1", "seqdetective.readlen.mate2", "seqdetective.judgement.mate1", "seqdetective.judgement.mate2", "seqdetective.judgement.reason", "platform_family", "instrument_generation", "read_bias", "selection_class", "prep_kit", "sc_or_bulk", "tech_class", "technology", "tech_variant", "submission.bioprojectsource.country", "earliest_date", "devstage_curation", "devstage_curation_coarse", "tissue_curation", "tissue_curation_coarse"], "primary_keys": ["rowid"], "primary_key_values": ["61688"], "units": {}, "query_ms": 12.566143999720225}